7T1E | pdb_00007t1e

Structure of monomeric and dimeric human CCL20

PDB DOI: https://doi.org/10.2210/pdb7T1E/pdb

Classification: IMMUNE SYSTEM
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-12-01 Released: 2022-12-14
Deposition Author(s): Peterson, F.C., Riutta, S.J., Volkman, B.F.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIH/NIAMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.46 Å
R-Value Free:
0.173 (Depositor), 0.175 (DCC)
R-Value Work:
0.163 (Depositor), 0.165 (DCC)
R-Value Observed:
0.163 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

The Chemokine, CCL20, and Its Receptor, CCR6, in the Pathogenesis and Treatment of Psoriasis and Psoriatic Arthritis

Shi, Z.R., Mabuchi, T., Riutta, S.J., Wu, X., Peterson, F.C., Volkman, B.F., Hwang, S.T.

(2023) J Psoriasis Psoriatic Arthritis 8: 107-117

DOI: https://doi.org/10.1177/24755303231159106

Macromolecule Content

Total Structure Weight: 41.54 kDa
Atom Count: 3,260
Modeled Residue Count: 333
Deposited Residue Count: 350
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
C-C motif chemokine 20	A, B, C, D, E	70	Homo sapiens	Mutation(s): 0 Gene Names: CCL20, LARC, MIP3A, SCYA20
UniProt & NIH Common Fund Data Resources
Find proteins for P78556 (Homo sapiens) Explore P78556 Go to UniProtKB: P78556
PHAROS: P78556 GTEx: ENSG00000115009
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P78556
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SIN Query on SIN Download:Ideal Coordinates CCD File SDF format, chain O [auth E] SDF format, chain J [auth B] SDF format, chain I [auth B] MOL2 format, chain O [auth E] MOL2 format, chain J [auth B] MOL2 format, chain I [auth B] mmCIF format, chain O [auth E] mmCIF format, chain J [auth B] mmCIF format, chain I [auth B]	I [auth B], J [auth B], O [auth E]	SUCCINIC ACID C₄ H₆ O₄ KDYFGRWQOYBRFD-UHFFFAOYSA-N		Interactions Focus chain I [auth B] Focus chain J [auth B] Focus chain O [auth E] Interactions & Density Focus chain I [auth B] Focus chain J [auth B] Focus chain O [auth E]
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain R [auth E] SDF format, chain N [auth D] SDF format, chain K [auth B] MOL2 format, chain R [auth E] MOL2 format, chain N [auth D] MOL2 format, chain K [auth B] mmCIF format, chain R [auth E] mmCIF format, chain N [auth D] mmCIF format, chain K [auth B]	K [auth B], N [auth D], R [auth E]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain K [auth B] Focus chain N [auth D] Focus chain R [auth E] Interactions & Density Focus chain K [auth B] Focus chain N [auth D] Focus chain R [auth E]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain Q [auth E] SDF format, chain P [auth E] SDF format, chain M [auth D] SDF format, chain L [auth D] SDF format, chain H [auth A] SDF format, chain G [auth A] SDF format, chain F [auth A] MOL2 format, chain Q [auth E] MOL2 format, chain P [auth E] MOL2 format, chain M [auth D] MOL2 format, chain L [auth D] MOL2 format, chain H [auth A] MOL2 format, chain G [auth A] MOL2 format, chain F [auth A] mmCIF format, chain Q [auth E] mmCIF format, chain P [auth E] mmCIF format, chain M [auth D] mmCIF format, chain L [auth D] mmCIF format, chain H [auth A] mmCIF format, chain G [auth A] mmCIF format, chain F [auth A]	F [auth A] G [auth A] H [auth A] L [auth D] M [auth D] F [auth A], G [auth A], H [auth A], L [auth D], M [auth D], P [auth E], Q [auth E]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain L [auth D] Focus chain M [auth D] Focus chain P [auth E] Focus chain Q [auth E] Interactions & Density Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain L [auth D] Focus chain M [auth D] Focus chain P [auth E] Focus chain Q [auth E]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.46 Å
R-Value Free: 0.173 (Depositor), 0.175 (DCC)
R-Value Work: 0.163 (Depositor), 0.165 (DCC)
R-Value Observed: 0.163 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.203	α = 90
b = 60.203	β = 90
c = 231.268	γ = 120

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2022-12-14

Deposition Author(s):

Peterson, F.C.

Riutta, S.J.

Volkman, B.F.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI050872
National Institutes of Health/National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIH/NIAMS)	United States	AR063091